1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' |
gtctcgatctcggcctctccttccctttctgtgcaaccacttcgctaccaccacaaaccctcgagaaagcgatttcttttgggttttacttggaccaagtttcattgactgctcttctgtgtgtttgtgtttgtttgactgctcttctgcgtgtttgtgtttgaaattgttgtgtaaaaaaattgtgctttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGCACTGGATCGAGGCT
species | Oryza sativa |
transcript | LOC_Os12g05420.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88362869|gb|CI614225.1|CI614225
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|58600488|gb|CK011016.1|CK011016
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88827748|gb|CI778313.1|CI778313
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTEST: gi|87023716|gb|CI286467.1|CI286467
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTT
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88409692|gb|CI568982.1|CI568982
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTTAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGGAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88353149|gb|CI624113.1|CI624113
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88761736|gb|CI771292.1|CI771292
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88385913|gb|CI568581.1|CI568581
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88732261|gb|CI757109.1|CI757109
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGEST: gi|29688635|gb|CB684910.1|CB684910
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCACAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88388290|gb|CI627829.1|CI627829
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88315207|gb|CI611871.1|CI611871
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|58604460|gb|CK014988.1|CK014988
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88826469|gb|CI777034.1|CI777034
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|58677266|gb|CK065953.1|CK065953
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|117240969|gb|CT842912.1|CT842912
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|33797243|gb|CF324484.1|CF324484
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGEST: gi|88315574|gb|CI615446.1|CI615446
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
EST: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGNCTCAATGCCTCCAAG GTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
genomic: CGGAGACCGTAGCGTCGCGATGGAACCGCGTCAGCCTCAATGCCTCCAAGgtctcgatct ... tttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAG
cttctgcgtgtttgtgtttgaaattgttgtgtaaaaaaattgtgctttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGCACTGGATCGAGGCT
ctttgat putative branch site (score: 24)
aaattgttgtgtaaaa TA-rich tract
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtctcgatctcggcctctccttccctttctgtgcaaccacttcgctaccaccacaaaccctcgagaaagcgatttcttttgggttttacttggaccaagtttcattgactgctcttctgtgtgtttgtgtttgtttgactgctcttctgcgtgtttgtgtttgaaattgttgtgtaaaaaaattgtgctttgatgcagGTGGGTCAGGGTTTATCCAGAGACGGCAAGGCTCTGAAGCTGGCATTCCAGCACTGGATCGAGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG